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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $species_info = array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ) $local_species = 'aag' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $species_info = array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ) $local_species = 'aag' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $species_info = array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ) $local_species = 'aox' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $species_info = array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ) $local_species = 'aox' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $species_info = array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ) $local_species = 'cbr' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $species_info = array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ) $local_species = 'cbr' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $species_info = array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ) $local_species = 'cqu' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $species_info = array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ) $local_species = 'cqu' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $species_info = array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ) $local_species = 'nnu' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $species_info = array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ) $local_species = 'nnu' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ), 'gf_id' => 'HOM05D001071', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001071' ), 'data_identifier' => 'HOM05D001071', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001071', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '572', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p24460' => 'bna', 'A04p05970' => 'bna', 'A04p34700' => 'bna', 'A05p00970' => 'bna', 'A07p02480' => 'bna', 'A09p01050' => 'bna', 'A09p11770' => 'bna', 'A09p46630' => 'bna', 'A09p68860' => 'bna', 'A10p00860' => 'bna', 'Aa31LG10G9480' => 'aar', 'Aa31LG1G10410' => 'aar', 'Aa31LG1G28230' => 'aar', 'Aa31LG5G1240' => 'aar', 'Aa31sc61G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4488' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2308' => 'aag', 'Actinidia05293' => 'ach', 'Actinidia08009' => 'ach', 'Actinidia13124' => 'ach', 'Actinidia14369' => 'ach', 'Actinidia19194' => 'ach', 'Actinidia19762' => 'ach', 'Actinidia22228' => 'ach', 'Actinidia33033' => 'ach', 'Ah.03g141050' => 'amhyb', 'Ah.05g178820' => 'amhyb', 'Ah.07g198320' => 'amhyb', 'Ah.12g053570' => 'amhyb', 'AL1G11470' => 'aly', 'AL3G51470' => 'aly', 'AL4G46320' => 'aly', 'AL5G34570' => 'aly', 'AL6G51890' => 'aly', 'Aqoxy2G02014' => 'aox', 'Aqoxy4G03004' => 'aox', 'Aqoxy5G01590' => 'aox', 'Aqoxy5G04352' => 'aox', 'Aqoxy6G00223' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5TZ5KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SQ3H9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Q9000' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6N0MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLS3VZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7ZNDI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QZAD6M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXC3CC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WYV6C1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XSF16F' => 'arhy', 'AT1G01050' => 'ath', 'AT2G18230' => 'ath', 'AT2G46860' => 'ath', 'AT3G53620' => 'ath', 'AT4G01480' => 'ath', 'ATR0222G007' => 'atr', 'ATR0329G059' => 'atr', 'ATR0568G156' => 'atr', 'ATR0749G110' => 'atr', 'Atru.chr3.619' => 'acertr', 'Atru.chr5.791' => 'acertr', 'Atru.chr5.792' => 'acertr', 'Atru.chr8.1928' => 'acertr', 'AUR62004078' => 'cqu', 'AUR62004574' => 'cqu', 'AUR62007083' => 'cqu', 'AUR62007590' => 'cqu', 'AUR62019946' => 'cqu', 'AUR62022687' => 'cqu', 'AUR62040325' => 'cqu', 'AUR62042119' => 'cqu', 'BcaB01g02323' => 'bca', 'BcaB02g07769' => 'bca', 'BcaB02g08518' => 'bca', 'BcaB03g13553' => 'bca', 'BcaB03g16612' => 'bca', 'BcaB05g23980' => 'bca', 'BcaB06g29476' => 'bca', 'BcaB07g31679' => 'bca', 'BcaC02g06999' => 'bca', 'BcaC02g09144' => 'bca', 'BcaC02g12627' => 'bca', 'BcaC03g16089' => 'bca', 'BcaC04g22921' => 'bca', 'BcaC04g24092' => 'bca', 'BcaC04g24093' => 'bca', 'BcaC06g36387' => 'bca', 'BcaC07g39723' => 'bca', 'BcaC07g42332' => 'bca', 'BcaC07g42376' => 'bca', 'BolC2t09873H' => 'bol', 'BolC4t21764H' => 'bol', 'BolC4t25461H' => 'bol', 'BolC4t28736H' => 'bol', 'BolC5t28873H' => 'bol', 'BolC7t40866H' => 'bol', 'BolC8t50498H' => 'bol', 'BolC8t52857H' => 'bol', 'BolC9t53047H' => 'bol', 'BolC9t54279H' => 'bol', 'BraA02t07435Z' => 'bra', 'BraA04t16299Z' => 'bra', 'BraA04t18926Z' => 'bra', 'BraA05t19097Z' => 'bra', 'BraA07t28044Z' => 'bra', 'BraA09t35776Z' => 'bra', 'BraA09t36825Z' => 'bra', 'BraA09t40126Z' => 'bra', 'BraA09t42226Z' => 'bra', 'BraA10t42364Z' => 'bra', 'C02p38560' => 'bna', 'C04p01110' => 'bna', 'C04p38880' => 'bna', 'C04p72480' => 'bna', 'C05p00890' => 'bna', 'C07p04650' => 'bna', 'C08p28950' => 'bna', 'C08p53420' => 'bna', 'C09p01140' => 'bna', 'C09p13880' => 'bna', 'CAN.G125.27' => 'can', 'CAN.G358.58' => 'can', 'CAN.G390.32' => 'can', 'CAN.G567.111' => 'can', 'CAN.G71.4' => 'can', 'CAN.G792.15' => 'can', 'CANSAT01G1262' => 'cansat', 'CANSAT56G1298' => 'cansat', 'CANSAT56G1692' => 'cansat', 'CARHR001430' => 'chi', 'CARHR108760' => 'chi', 'CARHR142210' => 'chi', 'CARHR152470' => 'chi', 'CARHR163550' => 'chi', 'CARHR249570' => 'chi', 'CARHR250190' => 'chi', 'Carub.0001s0117' => 'cru', 'Carub.0003s3240' => 'cru', 'Carub.0004s2957' => 'cru', 'Carub.0005s2020' => 'cru', 'Carub.0006s3571' => 'cru', 'Ca_09557_v3' => 'car', 'Ca_09607_v3' => 'car', 'Ca_22291_v3' => 'car', 'Ca_22321_v3' => 'car', 'Ca_23483_v3' => 'car', 'Ca_24870_v3' => 'car', 'CBR_g24138' => 'cbr', 'CBR_g26262' => 'cbr', 'CBR_g3901' => 'cbr', 'CBR_g64125' => 'cbr', 'Cc06_g03010' => 'ccan', 'Cc07_g09780' => 'ccan', 'Cc08_g17020' => 'ccan', 'CDE02G2456' => 'cde', 'CDE04G0564' => 'cde', 'CDE04G3648' => 'cde', 'Cfa017433' => 'cfa', 'Ciclev10012723m.g' => 'ccl', 'Ciclev10022171m.g' => 'ccl', 'Ciclev10024501m.g' => 'ccl', 'Ciclev10024641m.g' => 'ccl', 'Ciclev10026346m.g' => 'ccl', 'CiPaw.01G085900' => 'cil', 'CiPaw.02G019700' => 'cil', 'CiPaw.02G045700' => 'cil', 'CiPaw.09G188600' => 'cil', 'CiPaw.10G142800' => 'cil', 'ClCG01G019700' => 'cla', 'ClCG04G008420' => 'cla', 'ClCG06G002360' => 'cla', 'COL.COLO4_14859' => 'col', 'COL.COLO4_22046' => 'col', 'COL.COLO4_23063' => 'col', 'Cpa.g.sc188.19' => 'cpa', 'Cpa.g.sc57.76' => 'cpa', 'Cpa.g.sc6.142' => 'cpa', 'Cre09.g387875' => 'cre', 'CsaV3_4G024730' => 'csa', 'CsaV3_6G008400' => 'csa', 'CsaV3_6G046410' => 'csa', 'CSS0002047' => 'camsi', 'CSS0007187' => 'camsi', 'CSS0008656' => 'camsi', 'CSS0010213' => 'camsi', 'CSS0019156' => 'camsi', 'CSS0022725' => 'camsi', 'CSS0035159' => 'camsi', 'CSS0044362' => 'camsi', 'CSS0046791' => 'camsi', 'DCAR_006570' => 'dca', 'DCAR_009255' => 'dca', 'DCAR_011475' => 'dca', 'DCAR_014833' => 'dca', 'DCAR_020856' => 'dca', 'Dinv13501' => 'din', 'Dinv18776' => 'din', 'Dinv35639' => 'din', 'Dinv37209' => 'din', 'Dinv40003' => 'din', 'Duzib093G1242' => 'dzi', 'Duzib106G0714' => 'dzi', 'Duzib128G1197' => 'dzi', 'Duzib133G0828' => 'dzi', 'Duzib138G1231' => 'dzi', 'Duzib147G1312' => 'dzi', 'Duzib264G0675' => 'dzi', 'ECA233G1722' => 'eca', 'ECA233G1789' => 'eca', 'ECA238G1699' => 'eca', 'ECA240G3630' => 'eca', 'ECA248G0434' => 'eca', 'EL10Ac1g00163' => 'bvu', 'EL10Ac5g12395' => 'bvu', 'EL10Ac6g15535' => 'bvu', 'EL10Ac7g17285' => 'bvu', 'Eucgr.A01238' => 'egr', 'Eucgr.D02652' => 'egr', 'Eucgr.E00014' => 'egr', 'Eucgr.I02418' => 'egr', 'Eucgr.K03162' => 'egr', 'FAN01G0564' => 'fan', 'FAN02G2131' => 'fan', 'FAN03G0784' => 'fan', 'FAN03G2351' => 'fan', 'FAN05G3561' => 'fan', 'FAN06G0446' => 'fan', 'FAN06G1202' => 'fan', 'FAN09G1775' => 'fan', 'FAN10G2201' => 'fan', 'FAN10G4127' => 'fan', 'FAN14G1449' => 'fan', 'FAN23G2203' => 'fan', 'FAN26G1974' => 'fan', 'FAN28G1617' => 'fan', 'FvH4_1g12970' => 'fve', 'FvH4_6g14350' => 'fve', 'FvH4_7g17871' => 'fve', 'FvH4_7g17880' => 'fve', 'Glyma.01G172400' => 'gma', 'Glyma.02G209900' => 'gma', 'Glyma.03G172700' => 'gma', 'Glyma.03G262000' => 'gma', 'Glyma.07G048300' => 'gma', 'Glyma.10G044700' => 'gma', 'Glyma.11G070800' => 'gma', 'Glyma.11G176373' => 'gma', 'Glyma.13G132400' => 'gma', 'Glyma.16G017200' => 'gma', 'Glyma.18G110900' => 'gma', 'Glyma.19G173600' => 'gma', 'Glyma.19G261100' => 'gma', 'Gohir.A04G079900' => 'ghi', 'Gohir.A07G133800' => 'ghi', 'Gohir.A08G123100' => 'ghi', 'Gohir.A09G158600' => 'ghi', 'Gohir.A12G063800' => 'ghi', 'Gohir.A12G117700' => 'ghi', 'Gohir.D03G097500' => 'ghi', 'Gohir.D04G119200' => 'ghi', 'Gohir.D07G138500' => 'ghi', 'Gohir.D08G144500' => 'ghi', 'Gohir.D09G154000' => 'ghi', 'Gohir.D12G063700' => 'ghi', 'Gohir.D12G121300' => 'ghi', 'Gorai.001G150500' => 'gra', 'Gorai.002G041300' => 'gra', 'Gorai.003G102600' => 'gra', 'Gorai.004G149200' => 'gra', 'Gorai.006G175500' => 'gra', 'Gorai.008G066900' => 'gra', 'Gorai.008G132200' => 'gra', 'Gorai.009G424300' => 'gra', 'GSVIVG01018930001' => 'vvi', 'GSVIVG01019697001' => 'vvi', 'GSVIVG01025621001' => 'vvi', 'GSVIVG01027459001' => 'vvi', 'HanXRQChr03g0083191' => 'han', 'HanXRQChr07g0191681' => 'han', 'HanXRQChr07g0192241' => 'han', 'HanXRQChr11g0349351' => 'han', 'HanXRQChr14g0453981' => 'han', 'HanXRQChr15g0489711' => 'han', 'Haze_15066' => 'cav', 'Haze_15757' => 'cav', 'Haze_15758' => 'cav', 'Haze_20739' => 'cav', 'Hma1.2p1_0074F.1_g038860' => 'hma', 'Hma1.2p1_0904F.1_g235310' => 'hma', 'Hma1.2p1_1065F.1_g253780' => 'hma', 'Hma1.2p1_1736F.1_g299913' => 'hma', 'HPP92_003108' => 'vpl', 'HPP92_006513' => 'vpl', 'HPP92_011916' => 'vpl', 'HPP92_011970' => 'vpl', 'HPP92_018593' => 'vpl', 'HPP92_018597' => 'vpl', 'Hund10123' => 'sun', 'Hund13992' => 'sun', 'Hund16442' => 'sun', 'Lalb_Chr04g0254121' => 'lal', 'Lalb_Chr05g0212711' => 'lal', 'Lalb_Chr10g0100941' => 'lal', 'Lalb_Chr15g0076601' => 'lal', 'Lalb_Chr16g0391081' => 'lal', 'Lalb_Chr17g0343101' => 'lal', 'Lalb_Chr20g0113191' => 'lal', 'Lalb_Chr21g0314381' => 'lal', 'Lalb_Chr25g0289531' => 'lal', 'Lj1g0018733' => 'lja', 'Lj2A100T71' => 'lonja', 'Lj2A151T47' => 'lonja', 'Lj2A455G50' => 'lonja', 'Lj2A455G51' => 'lonja', 'Lj2g0010696' => 'lja', 'Lj3A971T16' => 'lonja', 'Lj3g0019457' => 'lja', 'Lj4g0023875' => 'lja', 'Lj5g0018430' => 'lja', 'Lj9C609T12' => 'lonja', 'Lsat_1_v5_gn_1_55841' => 'lsa', 'Lsat_1_v5_gn_2_77240' => 'lsa', 'Lsat_1_v5_gn_6_11381' => 'lsa', 'Lsat_1_v5_gn_6_32441' => 'lsa', 'Lsat_1_v5_gn_6_82681' => 'lsa', 'Manes.01G137500' => 'mes', 'Manes.01G238900' => 'mes', 'Manes.02G095900' => 'mes', 'Manes.05G015300' => 'mes', 'Manes.08G077045' => 'mes', 'Mapoly0029s0027' => 'mpo', 'Mapoly0065s0068' => 'mpo', 'Mapoly0135s0038' => 'mpo', 'MBI04_g19001_MAGBIO' => 'mbi', 'MBI05_g32493_MAGBIO' => 'mbi', 'MBI05_g38959_MAGBIO' => 'mbi', 'MBI05_g47174_MAGBIO' => 'mbi', 'MD01G1091200' => 'mdo', 'MD01G1091400' => 'mdo', 'MD02G1144200' => 'mdo', 'MD04G1120600' => 'mdo', 'MD07G1161400' => 'mdo', 'MD07G1161500' => 'mdo', 'MD12G1137900' => 'mdo', 'MD15G1257800' => 'mdo', 'Medtr1g068810' => 'mtr', 'Medtr1g096640' => 'mtr', 'Medtr1g112430' => 'mtr', 'Medtr1g112450' => 'mtr', 'Medtr5g020840' => 'mtr', 'Medtr7g118340' => 'mtr', 'Medtr8g024050' => 'mtr', 'Medtr8g077180' => 'mtr', 'MELO3C003107.2' => 'cme', 'MELO3C007838.2' => 'cme', 'MELO3C022299.2' => 'cme', 'Migut.A01064' => 'egut', 'Migut.E00718' => 'egut', 'Migut.H02533' => 'egut', 'Migut.J00366' => 'egut', 'Migut.L01620' => 'egut', 'MSTRG.10272' => 'ama', 'MSTRG.12223' => 'ama', 'MSTRG.13694' => 'ama', 'MSTRG.19105' => 'ama', 'MSTRG.2036' => 'ama', 'MSTRG.2478' => 'ama', 'Nitab4.5_0000178g0320' => 'nta', 'Nitab4.5_0000349g0090' => 'nta', 'Nitab4.5_0000357g0350' => 'nta', 'Nitab4.5_0000527g0140' => 'nta', 'Nitab4.5_0000799g0030' => 'nta', 'Nitab4.5_0002077g0150' => 'nta', 'Nitab4.5_0002520g0030' => 'nta', 'Nitab4.5_0005099g0010' => 'nta', 'Nitab4.5_0005519g0060' => 'nta', 'Nitab4.5_0007490g0040' => 'nta', 'Nitab4.5_0008664g0030' => 'nta', 'Nitab4.5_0012254g0010' => 'nta', 'Nn1g00462' => 'nnu', 'Nn1g04935' => 'nnu', 'Nn2g10455' => 'nnu', 'Nn2g12905' => 'nnu', 'Nn5g29652' => 'nnu', 'Nn5g29653' => 'nnu', 'Nn7g37229' => 'nnu', 'Oeu012309.1' => 'oeu', 'Oeu025182.1' => 'oeu', 'Oeu029800.1' => 'oeu', 'Oeu035337.2' => 'oeu', 'Oeu036180.1' => 'oeu', 'Oeu041537.1' => 'oeu', 'Os01g0322300' => 'osa', 'Os01g0866500' => 'osa', 'Os01g0974800' => 'osa', 'Os02g0704900' => 'osa', 'Os04g0687100' => 'osa', 'Os05g0114000' => 'osa', 'Os05g0438500' => 'osa', 'Os10g0406100' => 'osa', 'Os11g0612950' => 'osa', 'Os12g0191150' => 'osa', 'Peaxi162Scf00039g01118' => 'pax', 'Peaxi162Scf00074g00019' => 'pax', 'Peaxi162Scf00117g00315' => 'pax', 'Peaxi162Scf00366g00625' => 'pax', 'Peaxi162Scf00407g00636' => 'pax', 'Peaxi162Scf01257g00029' => 'pax', 'PGR004G1347' => 'pgr', 'PGR004G2280' => 'pgr', 'PGR031G3057' => 'pgr', 'PGR042G0538' => 'pgr', 'PGR102G1441' => 'pgr', 'PGSC0003DMG400003514' => 'stu', 'PGSC0003DMG400004999' => 'stu', 'PGSC0003DMG400005858' => 'stu', 'PGSC0003DMG400008932' => 'stu', 'PGSC0003DMG400012223' => 'stu', 'Phvul.001G170300' => 'pvu', 'Phvul.002G032700' => 'pvu', 'Phvul.007G158400' => 'pvu', 'Phvul.009G259900' => 'pvu', 'Phvul.010G120800' => 'pvu', 'Potri.002G181300' => 'ptr', 'Potri.006G082500' => 'ptr', 'Potri.007G022700' => 'ptr', 'Potri.014G107100' => 'ptr', 'Pp3c12_19710' => 'ppa', 'Pp3c13_16700' => 'ppa', 'Pp3c3_18130' => 'ppa', 'Pp3c3_18290' => 'ppa', 'Pp3c3_18320' => 'ppa', 'Pp3c3_18660' => 'ppa', 'Pp3s755_30' => 'ppa', 'PRCOL_00004728' => 'pco', 'PRCOL_00005685' => 'pco', 'Prupe.2G200700' => 'ppe', 'Prupe.2G200800' => 'ppe', 'Prupe.6G249900' => 'ppe', 'Prupe.7G157400' => 'ppe', 'Psat2g157960' => 'psa', 'Psat3g000640' => 'psa', 'Psat4g094600' => 'psa', 'Psat4g218040' => 'psa', 'Psat6g067480' => 'psa', 'PSO063G4713' => 'pso', 'PSO170G2217' => 'pso', 'PSO339G2119' => 'pso', 'PSO339G6195' => 'pso', 'PSO384G0731' => 'pso', 'PSO648G0072' => 'pso', 'PSO782G2182' => 'pso', 'QL05p010479' => 'qlo', 'QL06p047014' => 'qlo', 'QL06p047047' => 'qlo', 'QL07p047151' => 'qlo', 'QL08p047930' => 'qlo', 'RcHm_v2.0_Chr1g0361321' => 'rch', 'RcHm_v2.0_Chr1g0361351' => 'rch', 'RcHm_v2.0_Chr2g0101021' => 'rch', 'RcHm_v2.0_Chr3g0467401' => 'rch', 'Rhsim02G0254500' => 'rsi', 'Rhsim05G0187800' => 'rsi', 'Rhsim07G0076000' => 'rsi', 'Sabra02G0133300' => 'sbr', 'Sabra06G0062300' => 'sbr', 'Sabra07G0019800' => 'sbr', 'Sabra14G0079200' => 'sbr', 'SalBow3G2062' => 'sbo', 'SalBow4G2893' => 'sbo', 'SalBow5G0487' => 'sbo', 'SalBow5G0628' => 'sbo', 'SalBow5G1714' => 'sbo', 'SalBow5G4809' => 'sbo', 'SalBow6G0092' => 'sbo', 'SalBow8G2166' => 'sbo', 'Sc01g0002110' => 'sci', 'Sc01g0003970' => 'sci', 'Sc01g0010920' => 'sci', 'Sc03g0003090' => 'sci', 'Sc16g0002630' => 'sci', 'Sed0004565' => 'sed', 'Sed0009938' => 'sed', 'Sed0014954' => 'sed', 'Sed0017491' => 'sed', 'Sed0017889' => 'sed', 'SEGI_04413' => 'sgi', 'SEGI_19068' => 'sgi', 'SEGI_28557' => 'sgi', 'SEGI_35120' => 'sgi', 'SGA_v2.0_scaffold104G30224' => 'sas', 'SGA_v2.0_scaffold126G33826' => 'sas', 'SGA_v2.0_scaffold35G14208' => 'sas', 'SGA_v2.0_scaffold36G14256' => 'sas', 'SMO111G0033' => 'smo', 'SMO351G0569' => 'smo', 'SMO351G0584' => 'smo', 'Solyc02g085050.3' => 'sly', 'Solyc08g013680.4' => 'sly', 'Solyc08g083370.4' => 'sly', 'Solyc09g010380.3' => 'sly', 'Solyc12g055830.2' => 'sly', 'Sopen02g029750' => 'spe', 'Sopen08g004520' => 'spe', 'Sopen09g005120' => 'spe', 'Sopen10g024680' => 'spe', 'Sopen12g024320' => 'spe', 'Sp1g01260' => 'spa', 'Sp3g31640' => 'spa', 'Sp4g28880' => 'spa', 'Sp5g08730' => 'spa', 'Sp6g01430' => 'spa', 'TAR375G1122' => 'tar', 'TAR381G0270' => 'tar', 'TAR463G0004' => 'tar', 'TAR623G1125' => 'tar', 'TAR623G1739' => 'tar', 'TAR629G2195' => 'tar', 'TAR633G0778' => 'tar', 'TAR636G0882' => 'tar', 'TAR636G3005' => 'tar', 'THA.LOC104801344' => 'tha', 'THA.LOC104802101' => 'tha', 'THA.LOC104804239' => 'tha', 'THA.LOC104806579' => 'tha', 'THA.LOC104815901' => 'tha', 'THA.LOC104823426' => 'tha', 'Thecc.01G032200' => 'tca', 'Thecc.01G331600' => 'tca', 'Thecc.05G044900' => 'tca', 'Thhalv10001628m.g' => 'esa', 'Thhalv10008767m.g' => 'esa', 'Thhalv10010704m.g' => 'esa', 'Thhalv10022844m.g' => 'esa', 'Thhalv10028951m.g' => 'esa', 'TPR.G10061' => 'tpr', 'TPR.G2338' => 'tpr', 'TPR.G24114' => 'tpr', 'TPR.G29853' => 'tpr', 'TPR.G29866' => 'tpr', 'TPR.G30268' => 'tpr', 'TPR.G40059' => 'tpr', 'TPR.G4720' => 'tpr', 'TWI09G0789' => 'twi', 'TWI14G0508' => 'twi', 'TWI23G1203' => 'twi', 'TWI53G0582' => 'twi', 'TWI59G1416' => 'twi', 'TWI74G0524' => 'twi', 'unitig_26.g9204' => 'ugi', 'unitig_60.g25584' => 'ugi', 'unitig_744.g24034' => 'ugi', 'unitig_899.g14979' => 'ugi', 'vmacro08673' => 'vma', 'vmacro11478' => 'vma', 'vmacro13189' => 'vma', 'vmacro13833' => 'vma', 'vmacro20121' => 'vma', 'vmacro20122' => 'vma', 'vmacro22841' => 'vma', 'vmacro23347' => 'vma', 'VMungo0331G0780' => 'vmu', 'VMungo0720G3175' => 'vmu', 'VMungo1215G2652' => 'vmu', 'VMungo1309G1958' => 'vmu', 'VMungo1383G1269' => 'vmu', 'Zm00001eb076120' => 'zma', 'Zm00001eb188340' => 'zma', 'Zm00001eb223280' => 'zma', 'Zm00001eb252030' => 'zma', 'Zm00001eb266490' => 'zma', 'Zm00001eb348520' => 'zma', 'Zm00001eb434320' => 'zma' ) $gf_id = 'HOM05D001071' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001071' ) $data_identifier = 'HOM05D001071' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 19, 'bol' => (int) 10, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 3, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 4, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 6, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 8, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434320' $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